Antigen

Antigen Class

TFs and others

Antigen

Srf

Cell type

Cell type Class

Others

Cell type

Cornea

MeSH Description

The transparent anterior portion of the fibrous coat of the eye consisting of five layers: stratified squamous CORNEAL EPITHELIUM; BOWMAN MEMBRANE; CORNEAL STROMA; DESCEMET MEMBRANE; and mesenchymal CORNEAL ENDOTHELIUM. It serves as the first refracting medium of the eye. It is structurally continuous with the SCLERA, avascular, receiving its nourishment by permeation through spaces between the lamellae, and is innervated by the ophthalmic division of the TRIGEMINAL NERVE via the ciliary nerves and those of the surrounding conjunctiva which together form plexuses. (Cline et al., Dictionary of Visual Science, 4th ed)

Sample

source_name

cornea

tissue

whole cornea

age

~8 weeks

strain

mixed background

chip antibody

SRF (Santa Cruz Biotechnology, sc-335, Lot# I2712)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and SRF-DNA complexes were isolated with antibody. ChIP and Input DNAs were prepared for amplification by converting overhangs into phosphorylated blunt ends and adding an adenine to the 3’-ends. Illumina genomic adapters were ligated and the sample was size-fractionated (200-300 bp) on an agarose gel. After a final PCR amplification step (18 cycles), the resulting DNA libraries were quantified and sequenced on HiSeq 2000.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

40398680

Reads aligned (%)

88.1

Duplicates removed (%)

42.7

Number of peaks

20903 (qval < 1E-05)

mm9

Number of total reads

40398680

Reads aligned (%)

88.0

Duplicates removed (%)

42.8

Number of peaks

20896 (qval < 1E-05)